The gist is that Boehner originally came to an agreement with Senate Majority Leader Harry Reid and Senate Minority Leader Mitch McConnell on a plan, and that this plan was scrapped for the eventual Budget Control Act which contained the sequestration clause.

Essentially, the 2 percent that Boehner didn't want was the sequestration:

Yes, the bipartisan Budget Control Act as originally conceived by Speaker Boehner, Senator Reid, and Senator McConnell did not include the sequester. The one change to the original deal was the inclusion of this trigger mechanism – so that the President would not have to deal with the debt limit again before his re-election campaign. It was only at the White House’s insistence that we now have what is popularly known as the Obamaquester. It’s a fact.